Co-expression analysis

Gene ID At1g61140
Gene name EDA16 (embryo sac development arrest 16)
Module size 14 genes
NF 0.21
%ile 20.5



Co-expression network

pink confeito: Transcription factor, green bicone: Binding protein, red cone: Enzyme protein, blue sphere: Other protein
large node: VF over 0.50, middle node: over 0.25, small node: below 0.25



Co-expressed genes

Click gene/probe ID to show a list of genes that are co-expressed with the gene.

VF %ile CC Gene ID Repr. ID Gene name Func. O.I. H.G. S.X. Other DB
1.00100.01.00At1g61140842407EDA16 (embryo sac development arrest 16)F:in 6 functions;P:embryo sac development;C:unknown;MBFOPVAO.I.H.G.S.X.
0.4253.90.91At4g30600829183signal recognition particle receptor alpha subunit family proteinF:in 6 functions;P:intracellular protein transport, protein targeting, SRP-dependent cotranslational protein targeting to membrane;C:endoplasmic reticulum, signal recognition particle, endoplasmic reticulum targeting;BOMFAPVO.I.H.G.S.X.
0.4050.80.90At3g10800820249BZIP28Encodes bZIP28, a putative membrane-tethered transcriptional factor. Up-regulated in response to heat; a bZIP28 null mutant has a heat-sensitive phenotype. bZIP28 has a similar domain structure to the mammalian ATF6 protein involved in the unfolded protein response (UPR), and shares a bZIP domain, transmembrane domain, and a canonical S1P cleavage site. The bZIP28 seems to be glycosylated in vivo. bZIP28 does not appear to be transcriptionally up-regulated by UPR-inducing tunicamycin (TM) treatment. But, the expression level of three UPR-related genes is reduced in TM-treated zip28 mutants relative to wild type seedlings. And several UPR genes are transcriptionally upregulated when an N-terminal portion of the bZIP28 protein is expressed using the 35S promoter. A myc:bZIP28 fusion protein appears to be cleaved, likely at a canonical S2 cleavage site, following a TM treatment or a DTT stress-inducing treatment, but not a salt treatment. A portion of the mGFP:bZIP28 protein present in root cells appears to translocate from the cytoplasm and ER to the nucleus following TM treatment.O.I.H.G.S.X.
0.3643.60.89At2g20010816520-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.H.G.S.X.
0.2319.30.89At2g13650815850GONST1 (Golgi Nucleotide Sugar Transporter 1)GDP-mannose transporterO.I.H.G.S.X.
0.2217.50.90At1g32130840105-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPBVAO.I.H.G.S.X.
0.1912.70.90At3g04240819579SEC (secret agent)Has O-linked N-acetyl glucosamine transferase activity. Similar to Arabidopsis SPY gene.O.I.H.G.S.X.
0.1710.20.90At4g23850828484long-chain-fatty-acid--CoA ligase / long-chain acyl-CoA synthetaseF:catalytic activity;P:fatty acid biosynthetic process;C:plasma membrane;BOMFPAVO.I.H.G.S.X.
0.157.80.89At1g20110838600zinc finger (FYVE type) family proteinF:phosphoinositide binding;P:signal transduction;C:unknown;MFOPBVAO.I.H.G.S.X.
0.146.80.90At1g25280839112AtTLP10 (TUBBY LIKE PROTEIN 10)Member of TLP familyO.I.H.G.S.X.
0.146.80.90At5g04410830320NAC2NAC family member, hypothetical transcriptional regulatorO.I.H.G.S.X.
0.135.80.91At1g32230840115RCD1 (RADICAL-INDUCED CELL DEATH1)Encodes a protein belonging to the (ADP-ribosyl)transferase domain-containing subfamily of WWE protein-protein interaction domain protein family. Superoxide radicals are necessary and sufficient to propagate cell death or lesion formation in rcd1 mutants. Without stress treatment, RCD1 is localized in the nucleus. Under high salt or oxidative stress, RCD1 is found not only in the nucleus but also in the cytoplasm.O.I.H.G.S.X.
0.092.80.89At2g21520816691transporterF:transporter activity;P:transport;C:intracellular;MPFOO.I.H.G.S.X.
0.071.90.90At5g43560834376meprin and TRAF homology domain-containing protein / MATH domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFBPVAO.I.H.G.S.X.

Click More genes

Link to AtGenExpress Visualization Tool



Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
91.699.9GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
76.599.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
74.199.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
67.199.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
59.999.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
59.599.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
55.599.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
53.199.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
52.499.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
48.699.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
46.599.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
46.499.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
45.599.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.399.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
41.199.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.099.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.199.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.799.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.399.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.899.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.999.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.599.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.099.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
21.299.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
18.099.5GSM147966lec1-1 Globular Stage Seed 2GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO
17.899.5GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
17.499.5GSM147964WT Globular Stage Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
17.199.5GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
16.699.5GSM142624MC002_ATH1_A1.2-dubos-wtxGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
16.299.5GSM142631MC002_ATH1_A3.3-dubos-6kxGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
15.899.5E-ATMX-31-raw-cel-1516947916
15.599.5GSM142629MC002_ATH1_A3.1-dubos-6kxGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
14.899.4GSM62694Columbia flowers_stage 1-10GSE2848Auxin Response Factor mediated flower gene expressionLink to GEO
14.799.4GSM142623MC002_ATH1_A1.1-dubos-wtxGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
14.699.4GSM311274Laser capture microdissected (LCM) embryo proper at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
14.699.4E-MEXP-1797-raw-cel-1669768066
13.999.4GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
13.999.4GSM284384Arabidopsis GEP5GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
13.999.4GSM284385Arabidopsis GEP6GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
13.299.4E-MEXP-1797-raw-cel-1669767940
13.299.4GSM133756Lindsey_1-10_heart-stage-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
13.299.4E-MEXP-1797-raw-cel-1669768012
12.999.3GSM147963WT Globular Stage Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
12.899.3GSM142625MC002_ATH1_A1.3-dubos-wtxGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
12.899.3E-MEXP-1797-raw-cel-1669768030
12.199.3E-MEXP-1797-raw-cel-1669767994
11.999.3E-ATMX-31-raw-cel-1516947882
11.799.3GSM131621ATGE_55_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
11.599.3GSM142902WW001_ATH1_A1-WILLA-CONGSE6181Assembly of the cell wall pectic matrix.Link to GEO
11.599.3E-ATMX-13-raw-cel-1556149807
11.299.2GSM311273Laser capture microdissected (LCM) embryo proper at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
11.299.2E-MEXP-1797-raw-cel-1669767985
11.199.2GSM131579ATGE_32_A2GSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
11.199.2E-MEXP-1797-raw-cel-1669768057
10.999.2GSM131623ATGE_55_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
10.999.2E-ATMX-31-raw-cel-1516947899
10.899.2GSM131581ATGE_32_C2GSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
10.899.2E-ATMX-13-raw-cel-1556149919
10.799.2E-MEXP-849-raw-cel-1181980942
10.599.2GSM284390Arabidopsis GPE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
10.499.2GSM131622ATGE_55_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
10.099.2E-ATMX-13-raw-cel-1556149871
9.899.1GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.799.1GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
9.699.1E-MEXP-1797-raw-cel-1669767958
9.599.1GSM142642MC002_ATH1_A7.2-dubos-wLhGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
9.599.1GSM311296Laser capture microdissected (LCM) general seed coat at the linear-cotyledon stage, biological replicate 2GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
9.599.1GSM131580ATGE_32_B2GSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
9.499.1E-MEXP-849-raw-cel-1181980894
9.299.1GSM311277Laser capture microdissected (LCM) peripheral endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
9.199.1GSM142652MC002_ATH1_A10.3-dubos-wthGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
9.099.1E-MEXP-1797-raw-cel-1669768048
8.899.0GSM142650MC002_ATH1_A10.1-dubos-wthGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
8.799.0GSM311284Laser capture microdissected (LCM) general seed coat at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
8.799.0GSM147965lec1-1 Globular Stage Seed 1GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1331GO:0006493The formation of O-glycans by addition of glycosyl groups either to the hydroxyl group of peptidyl-serine, peptidyl-threonine, peptidyl-hydroxylysine, or peptidyl-hydroxyproline, or to the phenol group of peptidyl-tyrosine.Link to AmiGO
0.1331GO:0006986A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an unfolded protein stimulus.Link to AmiGO
0.1331GO:0006990The activation of genes whose promoters contain a specific sequence elements such as the unfolded protein response element (UPRE; consensus CAGCGTG) or the ER stress-response element (ERSE; CCAAN(N)9CCACG), as a result of signaling via the unfolded protein response.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.050103060Protein exportLink to KEGG PATHWAY
0.043100071Fatty acid metabolismLink to KEGG PATHWAY
0.003201100Metabolic pathwaysLink to KEGG PATHWAY

Inter-species module comparison

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays



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